write_samplesheet: Function creates samplesheet compatible with SureTypeSCR
In Meiomap/SureTypeSCR: Library for (single-cell) SNP array processing

Description Usage Arguments Value Examples

Function is used in case data was converted from idat and sample sheet was not available with the data.

1 2	write_samplesheet(filename,array_positions,gtc_output,manifest,experiment_name='Experiment1', project_name='Project1',investigator_name='Investigator1')

`filename`	name/path of the newly created sample sheet
`array_positions`	data frame storing metadata about sample id, array id and position, following columns are required: `sampleid,arrayid,position`
`gtc_output`	path where GTC files are stored
`manifest`	name of the manifest file
`experiment_name`	experiment name
`project_name`	project name
`investigator_name`	investigator name

writes external file to filename

#library(GEOquery)

#gse <- getGEO("GSE19247",GSEMatrix = TRUE)
#manifest=system.file("files/HumanCytoSNP-12v2_H.bpm",package="SureTypeSCR")

#samplelist_sperm=as.data.frame(gse$`GSE19247-GPL6985_series_matrix.txt.gz`) %>% 
#  filter((str_detect(cell.type.ch1,'sperm')) & str_detect(cell.amplication.ch1,'MDA')) %>%
#  rownames()  

#metadf_sperm=map_if(samplelist_sperm,function(x) !is.null(x),
#                    function(x) getGEO_and_folder_in(x,download=TRUE))
#metadf_sperm_merged = Reduce(function(...) merge(..., all=T), metadf_sperm)

#write_samplesheet('samplesheet.csv',metadf_sperm_merged,'GTC',manifest)